ColabFold

ColabFold predicts protein folding structures and complexes using MMseqs2, which gives faster performance than AlphaFold.

Availability

Version

Delta

1.5.5

X

The ColabFold databases are avaiable on Delta at:

/work/hdd/data/colabfold

The colabfold module may be loaded to set the environement variable COLABFOLD_PATH to the above path.

module load colabfold/1.5.5

MMseqs2

MMseqs2 is available on Delta as a module:

$ module avail mmseqs2

------------------------------ /sw/user/modules ------------------------------
   mmseqs2/cpu.2025.09.29.postRel18    mmseqs2/gpu.2025.10.09.postRel18 (D)

   D:  Default Module

$ module load mmseqs2/<your_preferred_version>

There’s a version available for running on the CPU nodes that supports MPI, and there’s a version that was compiled for use with the A40 and A100 GPU nodes, which does not support MPI. The module names specify the type of node supported, the date on which the code was downloaded from the repository, and the fact that the code was downloaded after the stated release version (for example release version 18).

References